Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold755
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7326
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.21
Warning! 1274 characters in sequence are not A, C, G, or T
Found at i:2340 original size:303 final size:302
Alignment explanation
Indices: 1769--6054 Score: 6224
Period size: 303 Copynumber: 14.2 Consensus size: 302
1759 NNNNNNNNNN
** * *
1769 TGCAACTAAAAAAACATTATATGAAATAAAATTCGAAGGCTGCAACACGAGGACTTCCCAGGAGG
1 TGCAACTAAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGG
* *
1834 TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAGCCGCGGAGTTCTGATGGGATCCGGTG
66 TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTG
* * *
1899 CATTAGTGCTGGTATGATCGCACTCGTCAACTCTTGCGCAATCTATTCCTATAAAGGCTGCCTCC
131 CATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCT
* * * *
1964 TATCGCACTTGCGCCTCGAATTTAAATGCCAATTCGACCAAGTATCGTTTCAAATTATTTATTTC
196 TATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTTC
*
2029 ATAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
261 ACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * * **
2071 TGAAACGAAATAAAACAATATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAATAG
1 TGCAACTAAA-AAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
2136 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* *
2201 GCATTAGCT-CAGGTATGATCGCACCCGTCAACTCTTGCGCAACCTATTCATATAAAGGCTGCCT
130 GCATTAG-TGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* * * * ** *
2265 CTTATCGTACTTGAGCCTCGATTTTGAATACAAATACGATAAAATATCATTTCAAATTATTTATT
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
* * *
2330 TTAGAAAACGCAAATAACGAATGAGTTACACCACGACGAGAAAA
259 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * *
2374 TGCAACTAAAAAAAACATTATATGAAATAAAATGGGAAGGGTGCAACACGACGACTTCCCTGGAG
1 TGCAACT-AAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
* * *
2439 GTCACCCATCCTAGTACTACTCTCGCCCAAGGACGCTTAACTGCGGAGTTCTGATTGGATCTGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * *
2504 GCATTATTGCTGGAATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGACTC
130 GCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
* * * *
2569 TTATCGCACTTGCGCCTCGAATCTGAATACAAATTCGACCAATTATCGTTCCAAATTATGTATTT
195 TTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTT
*
2634 CACAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAA
260 CACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * * * *
2677 CGCAACTAAAAAAACATTATATGAAATAAAATTGGAAGGGTACAACACGAGGACTTCCTAGGAGG
1 TGCAACTAAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGG
* * * *
2742 TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTCACTTCGAAGTTCAGATGGGATCCGGTG
66 TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTG
* * * *
2807 CATTAGTGCTCGTATGATCGCACCCGTCAAATCTTGCGCAATCTATCCATATAAAGGCTGCCCCT
131 CATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCT
* * ** * **
2872 TATCGCACTTGCACCTCGAATTTAAAGGCAAATTCGACCAAATATTGTTTCAAATTATTTCCTTC
196 TATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTTC
* *
2937 ACAAAATGAAAATAACGAATGAGTTACACCACGTCGAGAAAA
261 ACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * *
2979 TGCATCTCAATAAAAACATTATATTAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAAGA
1 TGCAACT-AA-AAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGA
* * *
3044 GGTCACCCATCCTAGTACTACTCTTGCCCAAGCACGCTTAACTTCGGAGGTCTGATGGGATCCGG
64 GGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGG
* * *
3109 TG--TTAGTGCTGGTATGATCGCACACGACAACTCTTGCGCAATCTATTCATATAAAGGCTGCCC
129 TGCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* * * * *
3172 CTTATCGCAGTTGCGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATATACT
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
* * * * **
3237 TCACAAAATGCAAAAAATGAATGACTTACACCACGAGGAGAAAA
259 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * * *
3281 CGCAACTAAAAAAACCATTATTTGAAATAAAATGGGAGGGGTGCAACATGAGGACTTCTCAGGAG
1 TGCAACTAAAAAAA-CATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
* * *
3346 GTCACCTATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACGGAGTTCTGATGGGATCTGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* *
3411 GCATTA-TAGCTGGTATGATCGCACCCATCAACTCTTGCGCAATCTATTCATATAAAGGCTTCCT
130 GCATTAGT-GCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* * * * ** * *
3475 CTTATCGCACTTGCGCCTCGATTTTGAATACAAATTCGACAAAATACCGTTCCAAACAATTCACT
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
* *
3540 TCACAAAACGTAAATAACGAATGAGTTACACCATGTCGAGAAAA
259 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * * *
3584 CGCAACTAAAAAAACCATTATATGAATTCAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAC
1 TGCAACTAAAAAAA-CATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
* *
3649 GTCACGCATCCTAGTACTACTCTCGACCC-AGCACGCTTAACTACGGAGTTCTGATGGGATCCGG
65 GTCACCCATCCTAGTACTACTCTCG-CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGG
* * *
3713 TGCATTAGTGTTGGTATGATCGTACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTACCT
129 TGCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* * * *
3778 CTTATCGCACTTGCGCCTCGATTTTGAATACAAATTCGACAAAATATCG-TTCGAAATTATTCAC
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTC-AAATTATTTAT
* *
3842 ATCACAAAACACAAATAACGAATGAGTTACACCACGTCGAGAAAA
258 TTCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * *
3887 CGCAACTAAAAAAAACATTATATGAATTAGAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
1 TGCAACT-AAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
* * * *
3952 GTCACCCTTCCAAGTACTACTCTCGCCCAAGCACGTTTAACTGCGAAGTTCTGATGGGATCCGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * * * * *
4017 GCATTAGTACTGGTATGATCGTACCCATGAACTCTTGCACAATCTATTCATATAAGGGCTGCCTC
130 GCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
*
4082 TTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTT
195 TTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTT
*
4147 CACAAAACGCAAATAACGAATGAGTTGCACCACGTCGAGAAAA
260 CACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * *
4190 TGCAACAAAAAAAATC-TTATATGAAATAAAATGGGAGGGGTGTAACACGTGGACTTCCCAGGAG
1 TGCAACTAAAAAAA-CATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
* *
4254 GTCACCTATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACGGAGTTCTGATGGGATCCGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
*
4319 GCATTAGTACTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
130 GCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
* * *
4384 TTATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGGCCAAATATCGTTTCAAATTATTTATTT
195 TTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTT
* *
4449 CA-AGTAACGCAAATAACGAATTAGTTACACCACGTCGAGAAAA
260 CACA-AAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* ** * **
4492 TGCAACTAAAAATAACATTTTATGAAATAAAATTCGAAGGGTGCAACACGAGGACTTCCCAATAG
1 TGCAACTAAAAA-AACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
*
4557 GTCACCCATCCTAGTACTACTCTCGCCCAAGTACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * * *
4622 GCATTAGTTCTGGTATGATCGCACCCGTCAAATCTTGCGCAAGCTATTCATATAAAGGCTGCCAC
130 GCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
* * * **
4687 TTATCGTACTTGAGCCTC-AATTTTGAATACAAATACGATAAAATATCGTTTCAAATTATTTATT
195 TTATCGCACTTGCGCCTCGAA-TTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
*
4751 TCACAAAACGCAAATAACGAATGCA-TTACACCACGACGAGAAAA
259 TCACAAAACGCAAATAACGAATG-AGTTACACCACGTCGAGAAAA
* * * * *
4795 TGTAACTAAAAAAAACATTATATGAAATAAAATGGGAAGGGTGTAACACGACGACTTCCCTGGAG
1 TGCAACT-AAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
* * *
4860 GTCACCCATCCTAGTACTACTCTCGCCCAAGGACGCTTAACTGCGGAGTTCTGATTGGATCCGCT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* *
4925 GCATTA-TATCTGGAATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
130 GCATTAGT-GCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* * * * *
4989 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAGATCTTGTTCCAAATTATGTATT
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
* * *
5054 TCTCAAAACGCAAATAACGAATGAGTTACACCACGTGGACAAAA
259 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
*
5098 CGCAACTAAAAAAACATTATATGAAATAAAATGGGAAGGGG-GCAACACGAGGACTTCCCAGGAG
1 TGCAACTAAAAAAACATTATATGAAATAAAATGGG-AGGGGTGCAACACGAGGACTTCCCAGGAG
*
5162 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTTCGGAGTTCTGATGGGATCCGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * * *
5227 GCATTAGTGCTGGTATGCTCCCACCCTTCAATTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
130 GCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTC
* * * * *
5292 TTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAGATCTTGTTCCAAATTATGTATTT
195 TTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTT
*
5357 CTCAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
260 CACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
*
5400 TGCAACTCAATAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAAGA
1 TGCAACT-AA-AAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGA
*
5465 GGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTTCGGAGTTCTGATGGGATCCGG
64 GGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGG
* * * * *
5530 TGCATTAGTGCTGGTATGCTCCCACCCTTCAATTCTTGCGCAATCTATTCATATAAAGGCTGCCC
129 TGCATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* * ** * * *
5595 CTTATCGGAGTTATGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACT
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
* * *
5660 TCACAAAACGCAAAAAATGAATTAGTTACACCACGTCGAGAAAA
259 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * *
5704 CGCAACTAAAAAAACCATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGAATTCTCAGGAG
1 TGCAACTAAAAAAA-CATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAG
*
5769 GTCACCCATCCTAGTGCTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
65 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * * * *
5834 G-ACTTAGTGCTGGTATGATCGCACCGGTCAAATCTTGCGCAATCCATTTATATAAGGGCTGCCT
130 GCA-TTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCT
* *
5898 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACAAAATATCGTTTCGAATTATTTATT
194 CTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATT
* *
5963 CCACAAAACGCAAATAACGAATGAGTTACACCATGTCGAGAAAA
259 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
* * *
6007 TGCAACT-AAAAAACATTTTATGAAATAAAATGAGAAGGGTGCAACACG
1 TGCAACTAAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACG
6055 CTAGGAAGTC
Statistics
Matches: 3595, Mismatches: 355, Indels: 69
0.89 0.09 0.02
Matches are distributed among these distances:
300 5 0.00
301 141 0.04
302 1015 0.28
303 2022 0.56
304 412 0.11
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (302 bp):
TGCAACTAAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGG
TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTG
CATTAGTGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCT
TATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATATCGTTTCAAATTATTTATTTC
ACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
Found at i:4294 original size:908 final size:908
Alignment explanation
Indices: 1770--6054 Score: 6288
Period size: 908 Copynumber: 4.7 Consensus size: 908
1760 NNNNNNNNNT
* *
1770 GCAACTAAAAAAACATTATATGAAATAAAATTCGAAGGCTGCAACACGAGGACTTCCCAGGAGGT
1 GCAACTAAAAAAACATTATATGAAATAAAATTGGAAGGGTGCAACACGAGGACTTCCCAGGAGGT
* *
1835 CACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAGCCGCGGAGTTCTGATGGGATCCGGTGC
66 CACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGC
* * *
1900 ATTAGTGCTGGTATGATCGCACTCGTCAACTCTTGCGCAATCTATTCCTATAAAGGCTGCCTCC-
131 ATTAGTGCTGGTATGATCGCACCCGTCAAATCTTGCGCAATCTATTCATATAAAGGCTGCC-CCT
* * *
1964 TATCGCACTTGCGCCTCGAATTTAAATGCCAATTCGACCAAGTATCGTTTCAAATTATTTATTTC
195 TATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACTTC
* * * * *
2029 ATAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAATGAAACGAAATAAAACAATATAT
260 ACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAATGCAACTAAAAAAAACATTATAT
**
2094 GAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAATAGGTCACCCATCCTAGTACTACTCT
325 GAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCT
*
2159 CGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGCT-CAGGTATGATCGC
390 CGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAG-TACTGGTATGATCGC
* * * *
2223 ACCCGTCAACTCTTGCGCAACCTATTCATATAAAGGCTGCCTCTTATCGTACTTGAGCCTCGATT
454 ACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAAT
* * * * *
2288 TTGAATACAAATACGATAAAATATCATTTCAAATTATTTATTTTAGAAAACGCAAATAACGAATG
519 TTGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAATG
* *
2353 AGTTACACCACGACGAGAAAATGCAACTAAAAAAAACATTATATGAAATAAAATGGGAAGGGTGC
584 AGTTACACCACGTCGAGAAAATGCAAC-AAAAAAAACATTATATGAAATAAAATGGGAGGGGTGC
* * * *
2418 AACACGACGACTTCCCTGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGGACGCTTAACTGC
648 AACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTAC
* * * *
2483 GGAGTTCTGATTGGATCTGGTGCATTA-TTGCTGGAATGATCGCACCCGTCAACTCTTGCGCAAT
713 GGAGTTCTGATGGGATCCGGTGCATTAGTAGCTGGTATGATCGCACCCGTCAACTCTTGCGCAAT
* * *
2547 CTATTCATATAAAGGCTGACTCTTATCGCACTTGCGCCTCGAATCTGAATACAAATTCGACCAAT
778 CTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAA
* *
2612 TATCGTTCCAAATTATGTATTTCACAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAA
843 TACCGTTCCAAATTATGTATTTCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
2677 C
908 C
* *
2678 GCAACTAAAAAAACATTATATGAAATAAAATTGGAAGGGTACAACACGAGGACTTCCTAGGAGGT
1 GCAACTAAAAAAACATTATATGAAATAAAATTGGAAGGGTGCAACACGAGGACTTCCCAGGAGGT
* * * *
2743 CACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTCACTTCGAAGTTCAGATGGGATCCGGTGC
66 CACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGC
* *
2808 ATTAGTGCTCGTATGATCGCACCCGTCAAATCTTGCGCAATCTATCCATATAAAGGCTGCCCCTT
131 ATTAGTGCTGGTATGATCGCACCCGTCAAATCTTGCGCAATCTATTCATATAAAGGCTGCCCCTT
* * * *
2873 ATCGCACTTGCACCTCGAATTTAAAGGCAAATTCGACCAAATATTGTTTCAAATTATTTCCTTCA
196 ATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACTTCA
* * * *
2938 CAAAATGAAAATAACGAATGAGTTACACCACGTCGAGAAAATGCATCTCAATAAAAACATTATAT
261 CAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAATGCAACT-AAAAAAAACATTATAT
* *
3003 TAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAAGAGGTCACCCATCCTAGTACTACTCT
325 GAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCT
* * * *
3068 TGCCCAAGCACGCTTAACTTCGGAGGTCTGATGGGATCCGGTG--TTAGTGCTGGTATGATCGCA
390 CGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTACTGGTATGATCGCA
* * * *
3131 CACGACAACTCTTGCGCAATCTATTCATATAAAGGCTGCCCCTTATCGCAGTTGCGCCTCGAATT
455 CCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATT
* * * * * * * *
3196 TAAATGCAAATTCGACCAAATATCGTTTCAAATTATATACTTCACAAAATGCAAAAAATGAATGA
520 TGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAATGA
* ** * * *
3261 CTTACACCACGAGGAGAAAACGCAACTAAAAAAACCATTATTTGAAATAAAATGGGAGGGGTGCA
585 GTTACACCACGTCGAGAAAATGCAAC-AAAAAAAACATTATATGAAATAAAATGGGAGGGGTGCA
* * *
3326 ACATGAGGACTTCTCAGGAGGTCACCTATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACG
649 ACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACG
* *
3391 GAGTTCTGATGGGATCTGGTGCATTA-TAGCTGGTATGATCGCACCCATCAACTCTTGCGCAATC
714 GAGTTCTGATGGGATCCGGTGCATTAGTAGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATC
* * *
3455 TATTCATATAAAGGCTTCCTCTTATCGCACTTGCGCCTCGATTTTGAATACAAATTCGACAAAAT
779 TATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAAT
** * * *
3520 ACCGTTCCAAACAAT-TCACTTCACAAAACGTAAATAACGAATGAGTTACACCATGTCGAGAAAA
844 ACCGTTCCAAATTATGT-ATTTCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAA
3584 C
908 C
* * * * *
3585 GCAACTAAAAAAACCATTATATGAATTCAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGACG
1 GCAACTAAAAAAA-CATTATATGAAATAAAATTGGAAGGGTGCAACACGAGGACTTCCCAGGAGG
* *
3650 TCACGCATCCTAGTACTACTCTCGACCC-AGCACGCTTAACTACGGAGTTCTGATGGGATCCGGT
65 TCACCCATCCTAGTACTACTCTCG-CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * * * *
3714 GCATTAGTGTTGGTATGATCGTACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTACCTC
129 GCATTAGTGCTGGTATGATCGCACCCGTCAAATCTTGCGCAATCTATTCATATAAAGGCTGCCCC
* * * * * *
3779 TTATCGCACTTGCGCCTCGATTTTGAATACAAATTCGACAAAATATCG-TTCGAAATTATTCACA
194 TTATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTC-AAATTATTTACT
* *
3843 TCACAAAACACAAATAACGAATGAGTTACACCACGTCGAGAAAACGCAACTAAAAAAAACATTAT
258 TCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAATGCAACTAAAAAAAACATTAT
* * * *
3908 ATGAATTAGAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCTTCCAAGTACTACT
323 ATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACT
* *
3973 CTCGCCCAAGCACGTTTAACTGCGAAGTTCTGATGGGATCCGGTGCATTAGTACTGGTATGATCG
388 CTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTACTGGTATGATCG
* * * * *
4038 TACCCATGAACTCTTGCACAATCTATTCATATAAGGGCTGCCTCTTATCGCACTTGCGCCTCGAA
453 CACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAA
4103 TTTGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAAT
518 TTTGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAAT
*
4168 GAGTTGCACCACGTCGAGAAAATGCAACAAAAAAAATC-TTATATGAAATAAAATGGGAGGGGTG
583 GAGTTACACCACGTCGAGAAAATGCAACAAAAAAAA-CATTATATGAAATAAAATGGGAGGGGTG
* * *
4232 TAACACGTGGACTTCCCAGGAGGTCACCTATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTA
647 CAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTA
4297 CGGAGTTCTGATGGGATCCGGTGCATTAGTA-CTGGTATGATCGCACCCGTCAACTCTTGCGCAA
712 CGGAGTTCTGATGGGATCCGGTGCATTAGTAGCTGGTATGATCGCACCCGTCAACTCTTGCGCAA
* * *
4361 TCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGGCCAA
777 TCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAA
* * * * *
4426 ATATCGTTTCAAATTATTTATTTCA-AGTAACGCAAATAACGAATTAGTTACACCACGTCGAGAA
842 ATACCGTTCCAAATTATGTATTTCACA-AAACGCAAATAACGAATGAGTTACACCACGTCGAGAA
*
4490 AAT
906 AAC
* * **
4493 GCAACTAAAAATAACATTTTATGAAATAAAATTCGAAGGGTGCAACACGAGGACTTCCCAATAGG
1 GCAACTAAAAA-AACATTATATGAAATAAAATTGGAAGGGTGCAACACGAGGACTTCCCAGGAGG
*
4558 TCACCCATCCTAGTACTACTCTCGCCCAAGTACGCTTAACTGCGGAGTTCTGATGGGATCCGGTG
65 TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTG
* * *
4623 CATTAGTTCTGGTATGATCGCACCCGTCAAATCTTGCGCAAGCTATTCATATAAAGGCTGCCACT
130 CATTAGTGCTGGTATGATCGCACCCGTCAAATCTTGCGCAATCTATTCATATAAAGGCTGCCCCT
* * * * * ** *
4688 TATCGTACTTGAGCCTC-AATTTTGAATACAAATACGATAAAATATCGTTTCAAATTATTTATTT
195 TATCGCACTTGCGCCTCGAA-TTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACTT
* *
4752 CACAAAACGCAAATAACGAATGCA-TTACACCACGACGAGAAAATGTAACTAAAAAAAACATTAT
259 CACAAAACGCAAATAACGAATG-AGTTACACCACGTCGAGAAAATGCAACTAAAAAAAACATTAT
* * * *
4816 ATGAAATAAAATGGGAAGGGTGTAACACGACGACTTCCCTGGAGGTCACCCATCCTAGTACTACT
323 ATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACT
* * * *
4881 CTCGCCCAAGGACGCTTAACTGCGGAGTTCTGATTGGATCCGCTGCATTA-TATCTGGAATGATC
388 CTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTA-CTGGTATGATC
4945 GCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGA
452 GCACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGA
* * * * * * *
5010 ATTTGAATACAAATTCGACCAGATCTTGTTCCAAATTATGTATTTCTCAAAACGCAAATAACGAA
517 ATTTGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAA
* * * *
5075 TGAGTTACACCACGTGGACAAAACGCAACTAAAAAAACATTATATGAAATAAAATGGGAAGGGG-
582 TGAGTTACACCACGTCGAGAAAATGCAACAAAAAAAACATTATATGAAATAAAATGGG-AGGGGT
5139 GCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACT
646 GCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACT
* * * * *
5204 TCGGAGTTCTGATGGGATCCGGTGCATTAGT-GCTGGTATGCTCCCACCCTTCAATTCTTGCGCA
711 ACGGAGTTCTGATGGGATCCGGTGCATTAGTAGCTGGTATGATCGCACCCGTCAACTCTTGCGCA
5268 ATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCA
776 ATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCA
* * *
5333 GAT-CTTGTTCCAAATTATGTATTTCTCAAAACGCAAATAACGAATGAGTTACACCACGTCGAGA
841 AATAC-CGTTCCAAATTATGTATTTCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGA
*
5397 AAAT
905 AAAC
* * *
5401 GCAACTCAATAAAAACATTATATGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAAGAG
1 GCAACT-AA-AAAAACATTATATGAAATAAAATTGGAAGGGTGCAACACGAGGACTTCCCAGGAG
*
5466 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTTCGGAGTTCTGATGGGATCCGGT
64 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGT
* * * *
5531 GCATTAGTGCTGGTATGCTCCCACCCTTCAATTCTTGCGCAATCTATTCATATAAAGGCTGCCCC
129 GCATTAGTGCTGGTATGATCGCACCCGTCAAATCTTGCGCAATCTATTCATATAAAGGCTGCCCC
* * **
5596 TTATCGGAGTTATGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACTT
194 TTATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACTT
* * * * *
5661 CACAAAACGCAAAAAATGAATTAGTTACACCACGTCGAGAAAACGCAACTAAAAAAACCATTATA
259 CACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAATGCAACTAAAAAAAACATTATA
* * *
5726 TGAAATAAAATGGGAGGGGTGCAACACGAGGAATTCTCAGGAGGTCACCCATCCTAGTGCTACTC
324 TGAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTC
*
5791 TCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTG-ACTTAGTGCTGGTATGATCG
389 TCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCA-TTAGTACTGGTATGATCG
* * * * *
5855 CACCGGTCAAATCTTGCGCAATCCATTTATATAAGGGCTGCCTCTTATCGCACTTGCGCCTCGAA
453 CACCCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAA
* *
5920 TTTGAATACAAATTCGACAAAATATCGTTTCGAATTATTTATTCCACAAAACGCAAATAACGAAT
518 TTTGAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAAT
* * * * *
5985 GAGTTACACCATGTCGAGAAAATGCAAC-TAAAAAACATTTTATGAAATAAAATGAGAAGGGTGC
583 GAGTTACACCACGTCGAGAAAATGCAACAAAAAAAACATTATATGAAATAAAATGGGAGGGGTGC
6049 AACACG
648 AACACG
6055 CTAGGAAGTC
Statistics
Matches: 3019, Mismatches: 327, Indels: 62
0.89 0.10 0.02
Matches are distributed among these distances:
906 2 0.00
907 560 0.19
908 1632 0.54
909 819 0.27
910 6 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (908 bp):
GCAACTAAAAAAACATTATATGAAATAAAATTGGAAGGGTGCAACACGAGGACTTCCCAGGAGGT
CACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGC
ATTAGTGCTGGTATGATCGCACCCGTCAAATCTTGCGCAATCTATTCATATAAAGGCTGCCCCTT
ATCGCACTTGCGCCTCGAATTTAAATGCAAATTCGACCAAATATCGTTTCAAATTATTTACTTCA
CAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAATGCAACTAAAAAAAACATTATATG
AAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTC
GCCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTACTGGTATGATCGCAC
CCGTCAACTCTTGCGCAATCTATTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTT
GAATACAAATTCGACAAAATATCGTTTCAAATTATTTATTTCACAAAACGCAAATAACGAATGAG
TTACACCACGTCGAGAAAATGCAACAAAAAAAACATTATATGAAATAAAATGGGAGGGGTGCAAC
ACGAGGACTTCCCAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACGGA
GTTCTGATGGGATCCGGTGCATTAGTAGCTGGTATGATCGCACCCGTCAACTCTTGCGCAATCTA
TTCATATAAAGGCTGCCTCTTATCGCACTTGCGCCTCGAATTTGAATACAAATTCGACCAAATAC
CGTTCCAAATTATGTATTTCACAAAACGCAAATAACGAATGAGTTACACCACGTCGAGAAAAC
Done.